/*!
* \brief Read object from XML using system.
* \param inIter XML iterator of input document.
* \param ioSystem A reference to the system.
* \throw SCHNAPS::Core::IOException if a wrong tag is encountered.
* \throw SCHNAPS::Core::IOException if inProbabilities attribute is missing.
* \throw SCHNAPS::Core::RunTimeException if the primitive is undefined for the specific probabilities source.
*/
void BranchMulti::readWithSystem(PACC::XML::ConstIterator inIter, Core::System& ioSystem) {
schnaps_StackTraceBeginM();
if (inIter->getType() != PACC::XML::eData) {
throw schnaps_IOExceptionNodeM(*inIter, "tag expected!");
}
if (inIter->getValue() != getName()) {
std::ostringstream lOSS;
lOSS << "tag <" << getName() << "> expected, but ";
lOSS << "got tag <" << inIter->getValue() << "> instead!";
throw schnaps_IOExceptionNodeM(*inIter, lOSS.str());
}
// retrieve probabilities of executing each branch
if (inIter->getAttribute("inProbabilities").empty()) {
throw schnaps_IOExceptionNodeM(*inIter, "probabilities of executing each branch expected!");
}
mProbabilities_Ref.assign(inIter->getAttribute("inProbabilities"));
switch (mProbabilities_Ref[0]) {
case '@':
// individual variable value
case '#':
// environment variable value
case '%':
// local variable value
throw schnaps_RunTimeExceptionM("The primitive is undefined for the specific probabilities source!");
break;
case '$':
// parameter value
mProbabilities = Core::castHandleT<Core::Vector>(ioSystem.getParameters().getParameterHandle(mProbabilities_Ref.substr(1)));
break;
default: {
// direct value
std::stringstream lISS(mProbabilities_Ref);
PACC::Tokenizer lTokenizer(lISS);
lTokenizer.setDelimiters("|", "");
std::string lProbability;
double lSum = 0;
mProbabilities = new Core::Vector();
while (lTokenizer.getNextToken(lProbability)) {
mProbabilities->push_back(new Core::Double(SCHNAPS::str2dbl(lProbability)));
lSum += SCHNAPS::str2dbl(lProbability);
}
#ifndef SCHNAPS_NDEBUG
if (lSum != 1) {
std::cout << "Warning: multi branches probabilities must sum to 1 (current sum: " << lSum << "!";
std::cout << "\tIn: void SCHNAPS::Plugins::Control::BranchMulti::readWithSystem(PACC::XML::ConstIterator, SCHNAPS::Core::System&)\n";
}
#endif
break; }
}
setNumberArguments(mProbabilities->size());
schnaps_StackTraceEndM("void SCHNAPS::Plugins::Control::BranchMulti::readWithSystem(PACC::XML::ConstIterator, SCHNAPS::Core::System&)");
}
/*!
* \brief Read a linear GP mutation operator from XML tree.
* \param inNode XML node to use to read mutation operator.
* \param ioSystem Evolutionary system.
*/
void LinGP::MutationOp::readWithSystem(PACC::XML::ConstIterator inIter, System& ioSystem)
{
if((inIter->getType() != PACC::XML::eData) || (inIter->getValue() != getName())) {
std::ostringstream lOSS;
lOSS << "tag <" << getName() << "> expected!" << std::flush;
throw Beagle_IOExceptionNodeM(*inIter, lOSS.str());
}
std::string lMutationPbReadName = inIter->getAttribute("mutationpb");
if(lMutationPbReadName.empty() == false) mMutationPbName = lMutationPbReadName;
std::string lInstructMutatePbReadName = inIter->getAttribute("mutinstructpb");
if(lInstructMutatePbReadName.empty() == false) mInstructMutatePbName = lInstructMutatePbReadName;
}
/*!
* \brief Read a mutation operator from XML subtree.
* \param inIter XML iterator to use to read crossover operator.
* \param ioSystem Evolutionary system.
*/
void GP::MutationSwapSubtreeOp::readWithSystem(PACC::XML::ConstIterator inIter, System& ioSystem)
{
Beagle_StackTraceBeginM();
if((inIter->getType()!=PACC::XML::eData) || (inIter->getValue()!=getName())) {
std::ostringstream lOSS;
lOSS << "tag <" << getName() << "> expected!" << std::flush;
throw Beagle_IOExceptionNodeM(*inIter, lOSS.str());
}
std::string mMutationPbReadName = inIter->getAttribute("mutationpb");
if(mMutationPbReadName.empty() == false) mMutationPbName = mMutationPbReadName;
std::string mDistribPbReadName = inIter->getAttribute("distrpb");
if(mDistribPbReadName.empty() == false) mDistribPbName = mDistribPbReadName;
Beagle_StackTraceEndM();
}
/*!
* \brief Read a bit flip mutation operator from XML subtree.
* \param inIter XML iterator to use to read mutation operator.
* \param ioSystem Evolutionary system.
*/
void BitStr::MutationFlipBitOp::readWithSystem(PACC::XML::ConstIterator inIter, System& ioSystem)
{
Beagle_StackTraceBeginM();
if((inIter->getType()!=PACC::XML::eData) || (inIter->getValue()!=getName())) {
std::ostringstream lOSS;
lOSS << "tag <" << getName() << "> expected!" << std::flush;
throw Beagle_IOExceptionNodeM(*inIter, lOSS.str());
}
std::string lMutationPbReadName = inIter->getAttribute("mutationpb");
if(lMutationPbReadName.empty() == false) mMutationPbName = lMutationPbReadName;
std::string lBitMutatePbReadName = inIter->getAttribute("mutbitpb");
if(lBitMutatePbReadName.empty() == false) mBitMutatePbName = lBitMutatePbReadName;
Beagle_StackTraceEndM();
}
/*!
* \brief Read a recombination operator from XML tree.
* \param inIter XML iterator to use to read recombination operator.
* \param ioSystem Evolutionary system.
*/
void RecombinationOp::readWithSystem(PACC::XML::ConstIterator inIter, System& ioSystem)
{
Beagle_StackTraceBeginM();
if((inIter->getType()!=PACC::XML::eData) || (inIter->getValue()!=getName())) {
std::ostringstream lOSS;
lOSS << "tag <" << getName() << "> expected!" << std::flush;
throw Beagle_IOExceptionNodeM(*inIter, lOSS.str());
}
std::string lRecombProbaReadName = inIter->getAttribute("recombpb");
if(lRecombProbaReadName.empty()==false) mRecombProbaName = lRecombProbaReadName;
std::string lNumberRecombReadName = inIter->getAttribute("nbrindrecomb");
if(lNumberRecombReadName.empty()==false) mNumberRecombName = lNumberRecombReadName;
Beagle_StackTraceEndM();
}
void Beagle::GP::MutationEphemeralOpT<T>::readWithSystem(PACC::XML::ConstIterator inIter,
Beagle::System& ioSystem)
{
Beagle_StackTraceBeginM();
if((inIter->getType()!=PACC::XML::eData) || (inIter->getValue()!=getName())) {
std::ostringstream lOSS;
lOSS << "tag <" << getName() << "> expected!" << std::flush;
throw Beagle_IOExceptionNodeM(*inIter, lOSS.str());
}
std::string lMutationPbReadName = inIter->getAttribute("mutationpb");
if(lMutationPbReadName.empty() == false) mMutationPbName = lMutationPbReadName;
std::string lEphemeralNameParamName = inIter->getAttribute("primitname");
if(lEphemeralNameParamName.empty() == false) mEphemeralNameParamName = lEphemeralNameParamName;
Beagle_StackTraceEndM("void GP::MutationEphemeralOpT<T>::readWithSystem(PACC::XML::ConstIterator, System&)");
}
/*!
* \brief Read an ES vector from a XML subtree.
* \param inIter XML iterator from which the ES vector is read.
* \param ioContext Evolutionary context.
* \throw IOException If a reading error occured (generally bad file format)!
*/
void GA::ESVector::readWithContext(PACC::XML::ConstIterator inIter, Context& ioContext)
{
Beagle_StackTraceBeginM();
if((inIter->getType() != PACC::XML::eData) || (inIter->getValue() != "Genotype")) {
throw Beagle_IOExceptionNodeM(*inIter, "tag <Genotype> expected!");
}
std::string lGenotypeType = inIter->getAttribute("type");
if((lGenotypeType.empty() == false) && (lGenotypeType != getType())) {
std::ostringstream lOSS;
lOSS << "type given '" << lGenotypeType << "' mismatch type of the genotype '";
lOSS << getType() << "'!";
throw Beagle_IOExceptionNodeM(*inIter, lOSS.str());
}
PACC::XML::ConstIterator lChild = inIter->getFirstChild();
if((!lChild) || (lChild->getType()!=PACC::XML::eString)) {
throw Beagle_IOExceptionNodeM(*lChild, "expected content for the ES vector!");
}
clear();
std::istringstream lISS(lChild->getValue());
do {
char lC1='\0', lC2='\0', lC3='\0';
double lValue=DBL_MAX, lStrategy=DBL_MAX;
lISS >> lC1 >> lValue >> lC2 >> lStrategy >> lC3;
if((lC1!='(') || (lC2!=',') || (lC3!=')'))
throw Beagle_IOExceptionNodeM(*lChild, "bad format of ES vector!");
if((lValue==DBL_MAX) || (lStrategy==DBL_MAX))
throw Beagle_IOExceptionNodeM(*lChild, "bad format of ES vector!");
push_back(ESPair(lValue, lStrategy));
} while(lISS.get()==int('/'));
Beagle_StackTraceEndM("void GA::ESVector::readWithContext(PACC::XML::ConstIterator,Context&)");
}
/*!
* \brief Read object from XML using system.
* \param inIter XML iterator of input document.
* \param ioSystem A reference to the system.
* \throw SCHNAPS::Core::IOException if a wrong tag is encountered.
*/
void PrimitiveTree::readWithSystem(PACC::XML::ConstIterator inIter, System& ioSystem) {
schnaps_StackTraceBeginM();
if (inIter) {
if (inIter->getType() != PACC::XML::eData) {
throw schnaps_IOExceptionNodeM(*inIter, "tag expected!");
}
if (inIter->getValue() != getName()) {
std::ostringstream lOSS;
lOSS << "tag <" << getName() << "> expected, but ";
lOSS << "got tag <" << inIter->getValue() << "> instead!";
throw schnaps_IOExceptionNodeM(*inIter, lOSS.str());
}
// Get size attribute and reserve size accordingly
std::string lSizeText = inIter->getAttribute("size");
if (lSizeText.empty() == false) {
reserve(str2uint(lSizeText));
}
PACC::XML::ConstIterator lChild = inIter->getFirstChild();
if ((!lChild) || (lChild->getType() != PACC::XML::eData)) {
throw schnaps_IOExceptionNodeM(*lChild, "expected a XML tag for the primitive tree!");
}
clear();
readSubTree(lChild, ioSystem);
}
schnaps_StackTraceEndM("void SCHNAPS::Core::PrimitiveTree::readWithSystem(PACC::XML::ConstIterator, SCHNAPS::Core::System&)");
}
/*!
* \brief Read a float vector from a XML subtree.
* \param inIter XML iterator from which the float vector is read.
* \param ioContext Evolutionary context.
* \throw Beagle::IOException If a reading error occured (generally bad file format)!
*/
void GA::IntegerVector::readWithContext(PACC::XML::ConstIterator inIter, Context& ioContext)
{
Beagle_StackTraceBeginM();
if((inIter->getType() != PACC::XML::eData) || (inIter->getValue() != "Genotype")) {
throw Beagle_IOExceptionNodeM(*inIter, "tag <Genotype> expected!");
}
std::string lGenotypeType = inIter->getAttribute("type");
if((lGenotypeType.empty() == false) && (lGenotypeType != getType())) {
std::ostringstream lOSS;
lOSS << "type given '" << lGenotypeType << "' mismatch type of the genotype '";
lOSS << getType() << "'!";
throw Beagle_IOExceptionNodeM(*inIter, lOSS.str());
}
PACC::XML::ConstIterator lChild = inIter->getFirstChild();
if((!lChild) || (lChild->getType()!=PACC::XML::eString))
throw Beagle_IOExceptionNodeM(*lChild, "expected content for the float vector!");
clear();
std::istringstream lISS(lChild->getValue());
while(lISS.good()) {
int lValue=INT_MAX;
lISS >> lValue;
push_back(lValue);
if(lISS.good()==false) break;
int lDelim=lISS.get();
if((lISS.good()==false) || (lDelim==-1)) break;
}
Beagle_StackTraceEndM("void GA::IntegerVector::readWithContext(PACC::XML::ConstIterator,Context&)");
}
/*!
* \brief Read a Gaussian mutation operator from a XML subtree.
* \param inIter XML iterator to use to read mutation operator.
* \param ioSystem Evolutionary system.
*/
void FltVec::MutationGaussianOp::readWithSystem(PACC::XML::ConstIterator inIter, System& ioSystem)
{
Beagle_StackTraceBeginM();
if((inIter->getType()!=PACC::XML::eData) || (inIter->getValue()!=getName())) {
std::ostringstream lOSS;
lOSS << "tag <" << getName() << "> expected!" << std::flush;
throw Beagle_IOExceptionNodeM(*inIter, lOSS.str());
}
string lMutationPbReadName = inIter->getAttribute("mutationpb");
if(lMutationPbReadName.empty() == false) mMutationPbName = lMutationPbReadName;
string lMutateFloatPbReadName = inIter->getAttribute("mutfloatpb");
if(lMutateFloatPbReadName.empty() == false) mMutateFloatPbName = lMutateFloatPbReadName;
string lMutateGaussMuReadName = inIter->getAttribute("mutgaussmu");
if(lMutateGaussMuReadName.empty() == false) mMutateGaussMuName = lMutateGaussMuReadName;
string lMutateGaussSigmaReadName = inIter->getAttribute("mutgausssigma");
if(lMutateGaussSigmaReadName.empty() == false) mMutateGaussSigmaName = lMutateGaussSigmaReadName;
Beagle_StackTraceEndM();
}
/*!
* \brief Read an argument primitive from XML subtree.
* \param inIter XML iterator to read primitive from.
* \param ioContext Evolutionary context.
*/
void GP::Argument::readWithContext(PACC::XML::ConstIterator inIter, GP::Context& ioContext)
{
Beagle_StackTraceBeginM();
GP::Primitive::readWithContext(inIter, ioContext);
std::string lIndexValue = inIter->getAttribute("id");
if(lIndexValue.empty()==false) {
mIndex = str2uint(lIndexValue);
Beagle_AssertM(mIndex < ioContext.getGenotype().getNumberArguments());
}
Beagle_StackTraceEndM();
}
/*!
* \brief Read a initialization operator from a XML subtree.
* \param inIter XML iterator to use to read initialization operator.
* \param ioSystem Evolutionary system.
*/
void InitializationOp::readWithSystem(PACC::XML::ConstIterator inIter, System& ioSystem)
{
Beagle_StackTraceBeginM();
if((inIter->getType()!=PACC::XML::eData) || (inIter->getValue()!=getName())) {
std::ostringstream lOSS;
lOSS << "tag <" << getName() << "> expected!" << std::flush;
throw Beagle_IOExceptionNodeM(*inIter, lOSS.str());
}
std::string mReproProbaReadName = inIter->getAttribute("repropb");
if(mReproProbaReadName.empty() == false) mReproProbaName = mReproProbaReadName;
Beagle_StackTraceEndM();
}
/*!
* \brief Read object from XML using system.
* \param inIter XML iterator of input document.
* \param ioSystem A reference to the system.
* \throw SCHNAPS::Core::IOException if a wrong tag is encountered.
* \throw SCHNAPS::Core::IOException if inProbability attribute is missing.
*/
void Branch::readWithSystem(PACC::XML::ConstIterator inIter, Core::System& ioSystem) {
schnaps_StackTraceBeginM();
if (inIter->getType() != PACC::XML::eData) {
throw schnaps_IOExceptionNodeM(*inIter, "tag expected!");
}
if (inIter->getValue() != getName()) {
std::ostringstream lOSS;
lOSS << "tag <" << getName() << "> expected, but ";
lOSS << "got tag <" << inIter->getValue() << "> instead!";
throw schnaps_IOExceptionNodeM(*inIter, lOSS.str());
}
// retrieve probability of executing the first branch
if (inIter->getAttribute("inProbability").empty()) {
throw schnaps_IOExceptionNodeM(*inIter, "probability of executing first branch expected!");
}
mProbability_Ref = inIter->getAttribute("inProbability");
switch (mProbability_Ref[0]) {
case '@':
// individual variable value
case '#':
// environment variable value
case '%':
// local variable value
mProbability = NULL;
break;
case '$':
// parameter value
mProbability = Core::castHandleT<Core::Double>(ioSystem.getParameters().getParameterHandle(mProbability_Ref.substr(1)));
break;
default:
// direct value
mProbability = new Core::Double();
mProbability->readStr(mProbability_Ref);
break;
}
schnaps_StackTraceEndM("void SCHNAPS::Plugins::Control::Branch::readWithSystem(PACC::XML::ConstIterator, SCHNAPS::Core::System&)");
}
/*!
* \brief Read a multiobjective fitness from a XML subtree.
* \param inIter XML iterator to use to read the fitness value.
*/
void FitnessMultiObj::read(PACC::XML::ConstIterator inIter)
{
Beagle_StackTraceBeginM();
if((inIter->getType()!=PACC::XML::eData) || (inIter->getValue()!="Fitness"))
throw Beagle_IOExceptionNodeM(*inIter, "tag <Fitness> expected!");
const std::string& lValid = inIter->getAttribute("valid");
if(lValid.empty() || (lValid == "yes")) {
// Check type of fitness read
const std::string& lType = inIter->getAttribute("type");
if((lType.empty() == false) && (lType != getType())) {
std::ostringstream lOSS;
lOSS << "type given '" << lType << "' mismatch type of the fitness '";
lOSS << getType() << "'!";
throw Beagle_IOExceptionNodeM(*inIter, lOSS.str());
}
// Read objective values
clear();
for(PACC::XML::ConstIterator lChild=inIter->getFirstChild(); lChild; ++lChild) {
if((lChild->getType() != PACC::XML::eData) || (lChild->getValue() != "Obj")) continue;
PACC::XML::ConstIterator lChild2 = lChild->getFirstChild();
if(!lChild2) throw Beagle_IOExceptionNodeM(*lChild, "needed a double value in the <Obj> tag!");
if(lChild2->getType() != PACC::XML::eString)
throw Beagle_IOExceptionNodeM(*lChild2, "needed a double value in the <Obj> tag!");
push_back(str2dbl(lChild2->getValue()));
}
setValid();
} else if(lValid == "no") {
clear();
setInvalid();
}
else {
throw Beagle_IOExceptionNodeM(*inIter, "bad fitness validity value!");
}
Beagle_StackTraceEndM();
}
/*!
* \brief Read invoker primitive from XML subtree.
* \param inIter XML iterator to read the primitive from.
* \param ioContext Evolutionary context.
*/
void GP::Invoker::readWithContext(PACC::XML::ConstIterator inIter, GP::Context& ioContext)
{
Beagle_StackTraceBeginM();
GP::Primitive::readWithContext(inIter, ioContext);
std::string lIndexValue = inIter->getAttribute("id");
if(lIndexValue.empty()==false) mIndex = str2uint(lIndexValue);
unsigned int lArgsCount = 0;
for(PACC::XML::ConstIterator lChild=inIter->getFirstChild(); lChild; ++lChild) {
if(lChild->getType()==PACC::XML::eData) ++lArgsCount;
}
setNumberArguments(lArgsCount);
Beagle_StackTraceEndM("void GP::Invoker::readWithContext(PACC::XML::ConstIterator inIter, GP::Context& ioContext)");
}
/*!
* \brief Reading a history entry.
*/
void HistoryEntry::read(PACC::XML::ConstIterator inIter)
{
Beagle_StackTraceBeginM();
if((inIter->getType()!=PACC::XML::eData) || (inIter->getValue()!="Entry"))
throw Beagle_IOExceptionNodeM(*inIter, "tag <Entry> expected!");
std::string lIndividualVarText = inIter->getAttribute("var");
if(lIndividualVarText.empty())
throw Beagle_IOExceptionNodeM(*inIter, "attribute 'var' of the tag <Entry> expected!");
else
mIndividualVar = str2uint(lIndividualVarText);
std::string lGenerationText = inIter->getAttribute("generation");
if (lGenerationText.empty())
throw Beagle_IOExceptionNodeM(*inIter, "attribute 'generation' of the tag <Entry> expected!");
else
mGeneration = str2uint(lGenerationText);
mParents.clear();
mActions.clear();
mOpNames.clear();
for(PACC::XML::ConstIterator lChild(inIter->getFirstChild()); lChild; ++lChild) {
if(lChild->getType()==PACC::XML::eData) {
if(lChild->getValue()=="Parent") {
unsigned int lHistoryId = str2uint(lChild->getAttribute("id"));
unsigned int lHistoryVar = str2uint(lChild->getAttribute("var"));
mParents.push_back(HistoryID(lHistoryId, lHistoryVar));
} else if(lChild->getValue()=="Operations") {
mActions.push_back(lChild->getAttribute("action"));
mOpNames.push_back(lChild->getAttribute("opname"));
}
}
}
Beagle_StackTraceEndM();
}
/*!
* \brief Read a OversizeOp operator for XML tree.
* \param inIter XML iterator to use to read OversizeOp operator.
* \param ioSystem Evolutionary system.
*/
void OversizeOp::readWithSystem(PACC::XML::ConstIterator inIter, System& ioSystem)
{
Beagle_StackTraceBeginM();
if((inIter->getType()!=PACC::XML::eData) || (inIter->getValue()!=getName())) {
std::ostringstream lOSS;
lOSS << "tag <" << getName() << "> expected!" << std::flush;
throw Beagle_IOExceptionNodeM(*inIter, lOSS.str());
}
string lOversizeRatioReadName = inIter->getAttribute("ratio_name");
if(lOversizeRatioReadName.empty() == false) mOversizeRatioName = lOversizeRatioReadName;
ReplacementStrategyOp::readWithSystem(inIter, ioSystem);
Beagle_StackTraceEndM("void OversizeOp::readWithSystem(PACC::XML::ConstIterator, System&)");
}
/*!
* \brief Read a max fitness termination operator from a XML subtree.
* \param inIter XML iterator from which the operator is read.
* \param ioSystem Evolutionary system.
* \throw IOException If a reading error occurs.
*/
void TermMaxFitnessOp::readWithSystem(PACC::XML::ConstIterator inIter, System& ioSystem)
{
Beagle_StackTraceBeginM();
if((inIter->getType()!=PACC::XML::eData) || (inIter->getValue()!=getName())) {
std::ostringstream lOSS;
lOSS << "tag <" << getName() << "> expected!" << std::flush;
throw Beagle_IOExceptionNodeM(*inIter, lOSS.str());
}
std::string lFitnessStr = inIter->getAttribute("fitness");
if(lFitnessStr.empty() == false) {
mMaxFitnessDefault = str2dbl(lFitnessStr);
if(mMaxFitness != NULL) mMaxFitness->getWrappedValue() = mMaxFitnessDefault;
}
Beagle_StackTraceEndM();
}
/*!
* \brief Read genotype from a Beagle XML node.
* \param inIter XML iterator to read the genotype from.
* \param ioContext Evolutionary context.
*/
void Genotype::readWithContext(PACC::XML::ConstIterator inIter, Context& ioContext)
{
Beagle_StackTraceBeginM();
if((inIter->getType() != PACC::XML::eData) || (inIter->getValue() != "Genotype")) {
throw Beagle_IOExceptionNodeM(*inIter, "tag <Genotype> expected!");
}
std::string lGenotypeType = inIter->getAttribute("type");
if((lGenotypeType.empty() == false) && (lGenotypeType != getType())) {
std::ostringstream lOSS;
lOSS << "type given '" << lGenotypeType << "' mismatch type of the genotype '";
lOSS << getType() << "'!";
throw Beagle_IOExceptionNodeM(*inIter, lOSS.str());
}
Beagle_StackTraceEndM("void Genotype::readWithContext(PACC::XML::ConstIterator,Context&)");
}
void PopulationManager::readWithSystem(PACC::XML::ConstIterator inIter, SCHNAPS::Core::System& ioSystem) {
schnaps_StackTraceBeginM();
if (inIter->getType() != PACC::XML::eData) {
throw schnaps_IOExceptionNodeM(*inIter, "tag expected!");
}
if (inIter->getValue() != getName()) {
std::ostringstream lOSS;
lOSS << "tag <" << getName() << "> expected, but ";
lOSS << "got tag <" << inIter->getValue() << "> instead!";
throw schnaps_IOExceptionNodeM(*inIter, lOSS.str());
}
#ifdef SCHNAPS_FULL_DEBUG
printf("Reading population manager\n");
#endif
inIter = inIter->getFirstChild();
// read generator
mGenerator->read(inIter++);
// read population source
if (inIter->getType() != PACC::XML::eData) {
throw schnaps_IOExceptionNodeM(*inIter, "tag expected!");
}
if (inIter->getValue() != "Population") {
std::ostringstream lOSS;
lOSS << "tag <Population> expected, but ";
lOSS << "got tag <" << inIter->getValue() << "> instead!";
throw schnaps_IOExceptionNodeM(*inIter, lOSS.str());
}
for (PACC::XML::ConstIterator lChild = inIter->getFirstChild(); lChild; lChild++) {
if (lChild->getType() == PACC::XML::eData) {
if (lChild->getValue() != "SubPopulation") {
std::ostringstream lOSS;
lOSS << "tag <SubPopulation> expected, but ";
lOSS << "got tag <" << lChild->getValue() << "> instead!";
throw schnaps_IOExceptionNodeM(*lChild, lOSS.str());
}
if (lChild->getAttribute("time").empty()) {
throw schnaps_IOExceptionNodeM(*lChild, "time attribute expected!");
}
if (lChild->getAttribute("profile").empty()) {
throw schnaps_IOExceptionNodeM(*lChild, "profile attribute expected!");
}
if (lChild->getAttribute("size").empty()) {
throw schnaps_IOExceptionNodeM(*lChild, "size attribute expected!");
}
this->insert(std::pair<unsigned long, Source>(SCHNAPS::str2uint(lChild->getAttribute("time")),
Source(lChild->getAttribute("profile"), SCHNAPS::str2uint(lChild->getAttribute("size")))));
}
}
schnaps_StackTraceEndM("void SCHNAPS::Simulation::PopulationManager::readWithSystem(PACC::XML::ConstIterator, SCHNAPS::Core::System&)");
}
/*!
* \brief Read the member instance.
* \param inIter Iterator to XML node to read component from.
* \param ioContext Evolutionary context.
*/
void Member::readWithContext(PACC::XML::ConstIterator inIter, Context& ioContext)
{
Beagle_StackTraceBeginM();
if((inIter->getType() != PACC::XML::eData) || (inIter->getValue() != getName())) {
std::ostringstream lOSS;
lOSS << "expected to get tag '" << getName() << "' instead of tag '";
lOSS << inIter->getValue() << "'!";
throw Beagle_IOExceptionNodeM(*inIter, lOSS.str());
}
std::string lType = inIter->getAttribute("type");
if((lType.empty() == false) && (lType != getType())) {
std::ostringstream lOSS;
lOSS << "type given '" << lType << "' mismatch type of the member '";
lOSS << getType() << "'!";
throw Beagle_IOExceptionNodeM(*inIter, lOSS.str());
}
Beagle_StackTraceEndM("void Member::readWithContext(PACC::XML::ConstIterator,Context&)");
}
/*!
* \brief Read an individual from an XML node.
* \param inIter XML iterator to read the individual from.
* \param ioContext Evolutionary context to use to read the individual.
* \throw Beagle::IOException If the format is not respected.
*/
void Individual::readWithContext(PACC::XML::ConstIterator inIter, Context& ioContext)
{
Beagle_StackTraceBeginM();
if((inIter->getType()!=PACC::XML::eData) || (inIter->getValue()!="Individual")) {
throw Beagle_IOExceptionNodeM(*inIter, "tag <Individual> expected!");
}
// Be sure that the types are corresponding
const std::string& lIndivType = inIter->getAttribute("type");
if((lIndivType.empty() == false) && (lIndivType != getType())) {
std::ostringstream lOSS;
lOSS << "type given '" << lIndivType << "' mismatch type of the individual '";
lOSS << getType() << "'!";
throw Beagle_IOExceptionNodeM(*inIter, lOSS.str());
}
// Read members
readMembers(inIter->getFirstChild(), ioContext);
// Read fitness
readFitness(inIter->getFirstChild(), ioContext);
// Read genotypes
readGenotypes(inIter->getFirstChild(), ioContext);
Beagle_StackTraceEndM();
}
/*!
* \brief Read a vivarium from an XML node.
* \param inIter XML iterator to read the vivarium from.
* \param ioContext Evolutionary context to use to read the vivarium.
* \throw Beagle::IOException If the format is not respected.
*/
void Vivarium::readWithContext(PACC::XML::ConstIterator inIter, Context& ioContext)
{
Beagle_StackTraceBeginM();
if((inIter->getType()!=PACC::XML::eData) || (inIter->getValue()!="Vivarium")) {
throw Beagle_IOExceptionNodeM(*inIter, "tag <Vivarium> expected!");
}
// Be sure that the types are corresponding
const std::string& lVivariumType = inIter->getAttribute("type");
if((lVivariumType.empty()==false) && (lVivariumType!=getType())) {
std::ostringstream lOSS;
lOSS << "type given '" << lVivariumType << "' mismatch type of the vivarium '";
lOSS << getType() << "'!";
throw Beagle_IOExceptionNodeM(*inIter, lOSS.str());
}
// Read members
readMembers(inIter->getFirstChild(), ioContext);
// Read population
for(PACC::XML::ConstIterator lChild=inIter->getFirstChild(); lChild; ++lChild) {
if((lChild->getType()==PACC::XML::eData) && (lChild->getValue()=="Population")) {
readPopulation(lChild, ioContext);
}
}
Beagle_StackTraceEndM();
}
void BGFitness::read(PACC::XML::ConstIterator inNode) {
// Beagle_StackTraceBeginM();
if((inNode->getType()!=PACC::XML::eData) || (inNode->getValue()!="Fitness"))
throw Beagle_IOExceptionNodeM(*inNode, "tag <Fitness> expected!");
std::string lValid = inNode->getAttribute("valid").c_str();
if(lValid.empty() || (lValid == "yes")) {
std::string lType = inNode->getAttribute("type").c_str();
if(lType != "LogFitness")
throw Beagle_IOExceptionNodeM((*inNode), "fitness type mismatch!");
mUncompressedSize.clear();
mVariableData.clear();
mVariableName.clear();
mStateMatrices.clear();
for(PACC::XML::ConstIterator lChild=inNode->getFirstChild(); lChild; lChild=lChild->getNextSibling()) {
if(lChild->getValue() == "Obj") {
PACC::XML::ConstIterator lChild2 = lChild->getFirstChild();
if(!lChild2) throw Beagle_IOExceptionNodeM(*inNode, "no fitness value present!");
if(lChild2->getType() != PACC::XML::eString)
throw Beagle_IOExceptionNodeM(*inNode, "no fitness value present!");
mFitness = str2dbl(lChild2->getValue().c_str());
}
if(lChild->getValue() == "OriObj") {
PACC::XML::ConstIterator lChild2 = lChild->getFirstChild();
if(!lChild2) throw Beagle_IOExceptionNodeM(*inNode, "no original fitness value present!");
if(lChild2->getType() != PACC::XML::eString)
throw Beagle_IOExceptionNodeM(*inNode, "no original fitness value present!");
mOriginalFitness = str2dbl(lChild2->getValue().c_str());
}
if(lChild->getValue() == "StateMatrices") {
for(PACC::XML::ConstIterator lChild2=lChild->getFirstChild(); lChild2; lChild2=lChild2->getNextSibling()) {
PACC::Matrix lMatrix;
lMatrix.read(lChild2);
//MatrixInterface lInterface;
// lInterface.read(lMatrix,*lChild2);
mStateMatrices.push_back(lMatrix);
}
}
else if(lChild->getValue() == "Data") {
mVariableName.push_back(lChild->getAttribute("Name"));
mUncompressedSize.push_back( str2uint(lChild->getAttribute("usize")) );
if(str2uint(lChild->getAttribute("usize")) != 0) {
PACC::XML::ConstIterator lChild2 = lChild->getFirstChild();
if(!lChild2) {
throw Beagle_IOExceptionNodeM((*lChild), "needed a CDATA value in the <Path> tag!");
}
if(lChild2->getType() != PACC::XML::eString) {
throw Beagle_IOExceptionNodeM((*lChild2), "needed a string value in the <Path> tag!");
}
mVariableData.push_back(lChild2->getValue());
} else {
mVariableData.push_back("");
}
}
else if(lChild->getValue() == "DataSet") {
unsigned int lID = str2uint(lChild->getAttribute("ID"));
double lFitness = 0;
for(PACC::XML::ConstIterator lChild2=lChild->getFirstChild(); lChild2; lChild2=lChild2->getNextSibling()) {
if(lChild2->getValue() == "Obj") {
PACC::XML::ConstIterator lChild3 = lChild2->getFirstChild();
if(!lChild3) throw Beagle_IOExceptionNodeM(*inNode, "no fitness value present!");
if(lChild3->getType() != PACC::XML::eString)
throw Beagle_IOExceptionNodeM(*inNode, "no fitness value present!");
lFitness = str2dbl(lChild3->getValue());
}
else if(lChild2->getValue() == "Data") {
mVariableName.push_back(lChild2->getAttribute("Name"));
mVariableDataSet.push_back(lID);
mUncompressedSize.push_back( str2uint(lChild2->getAttribute("usize")) );
if(str2uint(lChild2->getAttribute("usize")) != 0) {
PACC::XML::ConstIterator lChild3 = lChild2->getFirstChild();
if(!lChild3) {
throw Beagle_IOExceptionNodeM((*lChild2), "needed a CDATA value in the <Path> tag!");
}
if(lChild3->getType() != PACC::XML::eString) {
throw Beagle_IOExceptionNodeM((*lChild3), "needed a string value in the <Path> tag!");
}
mVariableData.push_back(lChild3->getValue());
} else {
mVariableData.push_back("");
}
}
}
mDataSet[lID] = lFitness;
}
else if(lChild->getValue() == "Info") {
for(PACC::XML::ConstIterator lChild2=lChild->getFirstChild(); lChild2; lChild2=lChild2->getNextSibling()) {
std::string lInfoName = lChild2->getValue();
PACC::XML::ConstIterator lChild3 = lChild2->getFirstChild();
if(!lChild3) throw Beagle_IOExceptionNodeM(*inNode, "info data present!");
if(lChild3->getType() != PACC::XML::eString)
throw Beagle_IOExceptionNodeM(*inNode, "info data present!");
std::string lInfoData = lChild3->getValue();
mInfo[lInfoName] = lInfoData;
}
}
else if(lChild->getValue() == "BondGraph") {
mBondGraph = new GrowingHybridBondGraph;
mBondGraph->read(lChild);
}
else if(lChild->getValue() == "SimplifiedBondGraph") {
PACC::XML::ConstIterator lChild2 = lChild->getFirstChild();
if(!lChild2) throw Beagle_IOExceptionNodeM(*inNode, "No simplified bond graph present!");
if(lChild2->getValue() == "BondGraph") {
mSimplifiedBondGraph = new GrowingHybridBondGraph;
mSimplifiedBondGraph->read(lChild2);
}
}
else //Ignore anything else
continue;
}
setValid();
}
else if(lValid == "no") setInvalid();
else throw Beagle_IOExceptionNodeM((*inNode), "bad fitness validity value!");
// Beagle_StackTraceEndM("void LogFitness::read(Beagle::XMLNode::Handle inNode)");
}
/*!
* \brief Read a MCC's fitness from a XML subtree.
* \param inIter XML iterator to use to read the fitness values.
*/
void GP::FitnessMCC::read(PACC::XML::ConstIterator inIter)
{
Beagle_StackTraceBeginM();
if((inIter->getType() != PACC::XML::eData) || (inIter->getValue() != "Fitness")) {
throw Beagle_IOExceptionNodeM(*inIter, "tag <Fitness> expected!");
}
std::string lValid = inIter->getAttribute("valid");
if(lValid.empty() || (lValid == "yes")) {
// Check type of fitness read
std::string lType = inIter->getAttribute("type");
if((lType.empty() == false) && (lType != getType())) {
std::ostringstream lOSS;
lOSS << "type given '" << lType << "' mismatch type of the fitness '";
lOSS << getType() << "'!";
throw Beagle_IOExceptionNodeM(*inIter, lOSS.str());
}
// Read values of MCC's fitness
for(PACC::XML::ConstIterator lChild=inIter->getFirstChild(); lChild; ++lChild) {
if(lChild->getType() == PACC::XML::eData) {
if(lChild->getValue() == "MCC") {
PACC::XML::ConstIterator lChild2 = lChild->getFirstChild();
if(!lChild2) throw Beagle_IOExceptionNodeM(*lChild, "no MCC fitness value present!");
if(lChild2->getType() != PACC::XML::eString)
throw Beagle_IOExceptionNodeM(*lChild2, "no MCC fitness value present!");
mValue= str2dbl(lChild2->getValue());
} else if(lChild->getValue() == "TruePositives") {
PACC::XML::ConstIterator lChild2 = lChild->getFirstChild();
if(!lChild2) throw Beagle_IOExceptionNodeM(*lChild, "no value for true positives present!");
if(lChild2->getType() != PACC::XML::eString)
throw Beagle_IOExceptionNodeM(*lChild2, "no value for true positives present!");
mTruePositives= str2dbl(lChild2->getValue());
} else if(lChild->getValue() == "FalsePositives") {
PACC::XML::ConstIterator lChild2 = lChild->getFirstChild();
if(!lChild2) throw Beagle_IOExceptionNodeM(*lChild, "no value for false positives present!");
if(lChild2->getType() != PACC::XML::eString)
throw Beagle_IOExceptionNodeM(*lChild2, "no value for false positives present!");
mFalsePositives= str2dbl(lChild2->getValue());
} else if(lChild->getValue() == "TrueNegatives") {
PACC::XML::ConstIterator lChild2 = lChild->getFirstChild();
if(!lChild2) throw Beagle_IOExceptionNodeM(*lChild, "no value for true negatives present!");
if(lChild2->getType() != PACC::XML::eString)
throw Beagle_IOExceptionNodeM(*lChild2, "no value for true negatives present!");
mTrueNegatives= str2dbl(lChild2->getValue());
} else if(lChild->getValue() == "FalseNegatives") {
PACC::XML::ConstIterator lChild2 = lChild->getFirstChild();
if(!lChild2) throw Beagle_IOExceptionNodeM(*lChild, "no value for false negatives present!");
if(lChild2->getType() != PACC::XML::eString)
throw Beagle_IOExceptionNodeM(*lChild2, "no value for false negatives present!");
mFalseNegatives= str2uint(lChild2->getValue());
} else if(lChild->getValue() == "TruePositivesRel") {
PACC::XML::ConstIterator lChild2 = lChild->getFirstChild();
if(!lChild2) throw Beagle_IOExceptionNodeM(*lChild, "no value for true positives rel present!");
if(lChild2->getType() != PACC::XML::eString)
throw Beagle_IOExceptionNodeM(*lChild2, "no value for true positives rel present!");
mTruePositivesRel= str2dbl(lChild2->getValue());
} else if(lChild->getValue() == "FalsePositivesRel") {
PACC::XML::ConstIterator lChild2 = lChild->getFirstChild();
if(!lChild2) throw Beagle_IOExceptionNodeM(*lChild, "no value for false positives rel present!");
if(lChild2->getType() != PACC::XML::eString)
throw Beagle_IOExceptionNodeM(*lChild2, "no value for false positives rel present!");
mFalsePositivesRel= str2dbl(lChild2->getValue());
} else if(lChild->getValue() == "TrueNegativesRel") {
PACC::XML::ConstIterator lChild2 = lChild->getFirstChild();
if(!lChild2) throw Beagle_IOExceptionNodeM(*lChild, "no value for true negatives rel present!");
if(lChild2->getType() != PACC::XML::eString)
throw Beagle_IOExceptionNodeM(*lChild2, "no value for true negatives rel present!");
mTrueNegativesRel= str2dbl(lChild2->getValue());
} else if(lChild->getValue() == "FalseNegativesRel") {
PACC::XML::ConstIterator lChild2 = lChild->getFirstChild();
if(!lChild2) throw Beagle_IOExceptionNodeM(*lChild, "no value for false negatives Rel present!");
if(lChild2->getType() != PACC::XML::eString)
throw Beagle_IOExceptionNodeM(*lChild2, "no value for false negatives Rel present!");
mFalseNegativesRel= str2uint(lChild2->getValue());
}
}
}
} else if(lValid == "no") {
setInvalid();
}
else {
throw Beagle_IOExceptionNodeM(*inIter, "bad fitness validity value!");
}
Beagle_StackTraceEndM("void GP::FitnessMCC::read(PACC::XML::ConstIterator inIter)");
}
void TreeSTag::readWithContext(PACC::XML::ConstIterator inIter, Beagle::Context& ioContext){
Beagle_StackTraceBeginM();
GP::Context& lGPContext = castObjectT<GP::Context&>(ioContext);
if((inIter->getType()!=PACC::XML::eData) || (inIter->getValue()!="Genotype"))
throw Beagle_IOExceptionNodeM(*inIter, "tag <Genotype> expected!");
std::string lType = inIter->getAttribute("type").c_str();
if(lType.empty())
throw Beagle_IOExceptionNodeM(*inIter, "GP tree type of the genotype is not present!");
if(lType != "gptreetag")
throw Beagle_IOExceptionNodeM(*inIter, std::string("type of genotype mismatch, expected ")
+std::string("\"gptreetag\" but read \"")+lType+std::string("\" instead!"));
//Get structure id
std::string lStructureID = inIter->getAttribute("structureid").c_str();
mStructureID = str2uint(lStructureID);
// Get primitive set index
std::string lPrimitiveSetIndexText = inIter->getAttribute("primitiveSetIndex").c_str();
if(lPrimitiveSetIndexText.empty()) {
// No primitive set index was specified. This must be an old
// tree. Assume index is equal to tree's index
unsigned int lGenotypeIndex = ioContext.getGenotypeIndex();
if(lGenotypeIndex >= lGPContext.getSystem().getPrimitiveSuperSet().size()) {
throw Beagle_RunTimeExceptionM(std::string("In GP::Tree::readWithContext(): The ")+
std::string("'primitiveSetIndex' attribute was missing from an individual's genotype. ")+
std::string("It would normally be assumed that such a tree was to be mapped to the ")+
std::string("primitive set of the same index as the genotype. In this case that would ")+
std::string("result in an incorrect mapping because there are not enough primitive sets ")+
std::string("in the System. Perhaps this individual was not intended to be read with the ")+
std::string("current set of primitive sets?"));
}
setPrimitiveSetIndex(lGenotypeIndex);
}
else {
// primitiveSetIndex is a valid attribute.
unsigned int lPrimitiveSetIndex = str2uint(lPrimitiveSetIndexText);
if(lPrimitiveSetIndex >= lGPContext.getSystem().getPrimitiveSuperSet().size()) {
std::string lMessage = std::string("In GP::Tree::readWithContext(): The 'primitiveSetIndex' ")+
std::string("attribute contained the value '") + lPrimitiveSetIndexText +
std::string("' which was read as the number '") + uint2str(lPrimitiveSetIndex) +
std::string("'. This value is incorrect as there are not enough primitive sets in the ")+
std::string("System. Perhaps this individual was not intended to be read with the current ")+
std::string("set of primitive sets?");
throw Beagle_RunTimeExceptionM(lMessage);
}
setPrimitiveSetIndex(lPrimitiveSetIndex);
}
// Get numberArguments attribute
std::string lNumberArgumentsText = inIter->getAttribute("numberArguments").c_str();
if(lNumberArgumentsText.empty()) {
// numberArguments attribute wasn't defined. This must be an old
// tree. Assume the number of arguments is zero.
setNumberArguments(0);
}
else {
// numberArguments is a valid attribute.
setNumberArguments(str2uint(lNumberArgumentsText));
}
// Get size attribute and reserve size accordingly
std::string lSizeText = inIter->getAttribute("size").c_str();
if(lSizeText.empty()==false) reserve(str2uint(lSizeText));
PACC::XML::ConstIterator lChild = inIter->getFirstChild();
if((!lChild) || (lChild->getType()!=PACC::XML::eData))
throw Beagle_IOExceptionNodeM(*lChild, "expected a XML tag for the GP tree!");
clear();
readSubTree(lChild, lGPContext);
//Read BondGraph if any
const PACC::XML::Node* lParent = inIter->getParent();
PACC::XML::ConstFinder lIndivFinder = PACC::XML::ConstIterator(lParent);
PACC::XML::ConstIterator lBGTag = lIndivFinder.find("//BondGraph");
if(!lBGTag) {
return;
}
// mBondGraph = new GrowingHybridBondGraph;
// mBondGraph->read(lBGTag);
Beagle_StackTraceEndM("void GP::Tree::readWithContext(PACC::XML::ConstIterator inIter, Beagle::Context& ioContext)");
}
/*!
* \brief Read stats from a XML subtree.
* \param inIter XML iterator to read the stats from.
* \param ioContext Evolutionary context to use to read the hall-of-fame.
*/
void Stats::readWithContext(PACC::XML::ConstIterator inIter, Context& ioContext)
{
Beagle_StackTraceBeginM();
if((inIter->getType()!=PACC::XML::eData) || (inIter->getValue()!="Stats"))
throw Beagle_IOExceptionNodeM(*inIter, "tag <Stats> expected!");
// Be sure that the types are corresponding
std::string lIndivType = inIter->getAttribute("type");
if((lIndivType.empty()==false) && (lIndivType!=getType())) {
std::ostringstream lOSS;
lOSS << "type given '" << lIndivType << "' mismatch type of the statistics '";
lOSS << getType() << "'!";
throw Beagle_IOExceptionNodeM(*inIter, lOSS.str());
}
std::string lValid = inIter->getAttribute("valid");
clear();
mItemMap.clear();
if(lValid.empty() || (lValid == "yes")) {
mValid = true;
mID = inIter->getAttribute("id");
std::string lGenerationStr = inIter->getAttribute("generation");
if(lGenerationStr.empty() == false) mGeneration = str2uint(lGenerationStr);
else mGeneration = 0;
std::string lPopSizeStr = inIter->getAttribute("popsize");
if(lPopSizeStr.empty() == false) mPopSize = str2uint(lPopSizeStr);
else mPopSize = 0;
unsigned int lSize=0;
for(PACC::XML::ConstIterator lChild=inIter->getFirstChild(); lChild; ++lChild) {
if((lChild->getType()==PACC::XML::eData) && (lChild->getValue()=="Measure")) ++lSize;
}
resize(lSize);
unsigned int lIndexMeasure=0;
for(PACC::XML::ConstIterator lChild=inIter->getFirstChild(); lChild; ++lChild) {
if(lChild->getType() == PACC::XML::eData) {
if(lChild->getValue() == "Item") {
std::string lKey = lChild->getAttribute("key");
if(lKey.empty()) {
std::ostringstream lOSS;
lOSS << "expected a key attribute while reading a statistics item!";
throw Beagle_IOExceptionNodeM(*lChild, lOSS.str());
}
PACC::XML::ConstIterator lChild2 = lChild->getFirstChild();
if(!lChild2) {
std::ostringstream lOSS;
lOSS << "expected an item value while reading a statistics item!";
throw Beagle_IOExceptionNodeM(*lChild, lOSS.str());
}
if(lChild2->getType() != PACC::XML::eString) {
std::ostringstream lOSS;
lOSS << "expected an item value while reading a statistics item!";
throw Beagle_IOExceptionNodeM(*lChild2, lOSS.str());
}
mItemMap.insert(std::make_pair(lKey,str2dbl(lChild2->getValue())));
}
else if(lChild->getValue() == "Measure") {
(*this)[lIndexMeasure].mID = lChild->getAttribute("id");
(*this)[lIndexMeasure].mAvg = 0.0;
(*this)[lIndexMeasure].mStd = 0.0;
(*this)[lIndexMeasure].mMax = 0.0;
(*this)[lIndexMeasure].mMin = 0.0;
for(PACC::XML::ConstIterator lChild2=lChild->getFirstChild(); lChild2; ++lChild2) {
if(lChild2->getType() == PACC::XML::eData) {
if(lChild2->getValue() == "Avg") {
PACC::XML::ConstIterator lChild3 = lChild2->getFirstChild();
if(lChild3->getType() != PACC::XML::eString) continue;
else (*this)[lIndexMeasure].mAvg = str2dbl(lChild3->getValue());
} else if(lChild2->getValue() == "Std") {
PACC::XML::ConstIterator lChild3 = lChild2->getFirstChild();
if(lChild3->getType() != PACC::XML::eString) continue;
else (*this)[lIndexMeasure].mStd = str2dbl(lChild3->getValue());
} else if(lChild2->getValue() == "Max") {
PACC::XML::ConstIterator lChild3 = lChild2->getFirstChild();
if(lChild3->getType() != PACC::XML::eString) continue;
else (*this)[lIndexMeasure].mMax = str2dbl(lChild3->getValue());
} else if(lChild2->getValue() == "Min") {
PACC::XML::ConstIterator lChild3 = lChild2->getFirstChild();
if(lChild3->getType() != PACC::XML::eString) continue;
else (*this)[lIndexMeasure].mMin = str2dbl(lChild3->getValue());
}
}
}
++lIndexMeasure;
}
}
}
} else if(lValid == "no") mValid = false;
else throw Beagle_IOExceptionNodeM((*inIter), "bad stats validity value!");
Beagle_StackTraceEndM("void Stats::readWithContext(PACC::XML::ConstIterator,Context&)");
}
/*!
* \brief Read a Koza's fitness from a XML subtree.
* \param inIter XML iterator to use to read the fitness values.
*/
void GP::FitnessKoza::read(PACC::XML::ConstIterator inIter)
{
Beagle_StackTraceBeginM();
if((inIter->getType() != PACC::XML::eData) || (inIter->getValue() != "Fitness")) {
throw Beagle_IOExceptionNodeM(*inIter, "tag <Fitness> expected!");
}
std::string lValid = inIter->getAttribute("valid");
if(lValid.empty() || (lValid == "yes")) {
// Check type of fitness read
std::string lType = inIter->getAttribute("type");
if((lType.empty() == false) && (lType != getType())) {
std::ostringstream lOSS;
lOSS << "type given '" << lType << "' mismatch type of the fitness '";
lOSS << getType() << "'!";
throw Beagle_IOExceptionNodeM(*inIter, lOSS.str());
}
// Read values of Koza's fitness
for(PACC::XML::ConstIterator lChild=inIter->getFirstChild(); lChild; ++lChild) {
if(lChild->getType() == PACC::XML::eData) {
if(lChild->getValue() == "Normalized") {
PACC::XML::ConstIterator lChild2 = lChild->getFirstChild();
if(!lChild2) throw Beagle_IOExceptionNodeM(*lChild, "no normalized fitness value present!");
if(lChild2->getType() != PACC::XML::eString)
throw Beagle_IOExceptionNodeM(*lChild2, "no normalized fitness value present!");
mValue = str2dbl(lChild2->getValue());
} else if(lChild->getValue() == "Adjusted") {
PACC::XML::ConstIterator lChild2 = lChild->getFirstChild();
if(!lChild2) throw Beagle_IOExceptionNodeM(*lChild, "no adjusted fitness value present!");
if(lChild2->getType() != PACC::XML::eString)
throw Beagle_IOExceptionNodeM(*lChild2, "no adjusted fitness value present!");
mAdjustedFitness = str2dbl(lChild2->getValue());
} else if(lChild->getValue() == "Standardized") {
PACC::XML::ConstIterator lChild2 = lChild->getFirstChild();
if(!lChild2) throw Beagle_IOExceptionNodeM(*lChild, "no standardized fitness value present!");
if(lChild2->getType() != PACC::XML::eString)
throw Beagle_IOExceptionNodeM(*lChild2, "no standardized fitness value present!");
mStandardizedFitness = str2dbl(lChild2->getValue());
} else if(lChild->getValue() == "Raw") {
PACC::XML::ConstIterator lChild2 = lChild->getFirstChild();
if(!lChild2) throw Beagle_IOExceptionNodeM(*lChild, "no raw fitness value present!");
if(lChild2->getType() != PACC::XML::eString)
throw Beagle_IOExceptionNodeM(*lChild2, "no raw fitness value present!");
mRawFitness = str2dbl(lChild2->getValue());
} else if(lChild->getValue() == "Hits") {
PACC::XML::ConstIterator lChild2 = lChild->getFirstChild();
if(!lChild2) throw Beagle_IOExceptionNodeM(*lChild, "no hits value present!");
if(lChild2->getType() != PACC::XML::eString)
throw Beagle_IOExceptionNodeM(*lChild2, "no hits value present!");
mHits = str2uint(lChild2->getValue());
}
}
}
} else if(lValid == "no") {
setInvalid();
}
else {
throw Beagle_IOExceptionNodeM(*inIter, "bad fitness validity value!");
}
Beagle_StackTraceEndM("void GP::FitnessKoza::read(PACC::XML::ConstIterator inIter)");
}