/** {@inheritDoc} */
@Override
public void decodeFromArray(double[] encoded) {
EngineArray.arrayCopy(encoded, 0, getFlat().getWeights(), 0, getFlat().getWeights().length);
int index = getFlat().getWeights().length;
for (RadialBasisFunction rbf : flat.getRBF()) {
rbf.setWidth(encoded[index++]);
EngineArray.arrayCopy(encoded, index, rbf.getCenters(), 0, rbf.getCenters().length);
index += rbf.getCenters().length;
}
}
/** {@inheritDoc} */
@Override
public int encodedArrayLength() {
int result = this.getFlat().getWeights().length;
for (RadialBasisFunction rbf : flat.getRBF()) {
result += rbf.getCenters().length + 1;
}
return result;
}
/** {@inheritDoc} */
@Override
public void save(final OutputStream os, final Object obj) {
final EncogWriteHelper out = new EncogWriteHelper(os);
final RBFNetwork net = (RBFNetwork) obj;
final FlatNetworkRBF flat = (FlatNetworkRBF) net.getFlat();
out.addSection("RBF-NETWORK");
out.addSubSection("PARAMS");
out.addProperties(net.getProperties());
out.addSubSection("NETWORK");
out.writeProperty(BasicNetwork.TAG_BEGIN_TRAINING, flat.getBeginTraining());
out.writeProperty(BasicNetwork.TAG_CONNECTION_LIMIT, flat.getConnectionLimit());
out.writeProperty(BasicNetwork.TAG_CONTEXT_TARGET_OFFSET, flat.getContextTargetOffset());
out.writeProperty(BasicNetwork.TAG_CONTEXT_TARGET_SIZE, flat.getContextTargetSize());
out.writeProperty(BasicNetwork.TAG_END_TRAINING, flat.getEndTraining());
out.writeProperty(BasicNetwork.TAG_HAS_CONTEXT, flat.getHasContext());
out.writeProperty(PersistConst.INPUT_COUNT, flat.getInputCount());
out.writeProperty(BasicNetwork.TAG_LAYER_COUNTS, flat.getLayerCounts());
out.writeProperty(BasicNetwork.TAG_LAYER_FEED_COUNTS, flat.getLayerFeedCounts());
out.writeProperty(BasicNetwork.TAG_LAYER_CONTEXT_COUNT, flat.getLayerContextCount());
out.writeProperty(BasicNetwork.TAG_LAYER_INDEX, flat.getLayerIndex());
out.writeProperty(PersistConst.OUTPUT, flat.getLayerOutput());
out.writeProperty(PersistConst.OUTPUT_COUNT, flat.getOutputCount());
out.writeProperty(BasicNetwork.TAG_WEIGHT_INDEX, flat.getWeightIndex());
out.writeProperty(PersistConst.WEIGHTS, flat.getWeights());
out.writeProperty(BasicNetwork.TAG_BIAS_ACTIVATION, flat.getBiasActivation());
out.addSubSection("ACTIVATION");
for (final ActivationFunction af : flat.getActivationFunctions()) {
out.addColumn(af.getClass().getSimpleName());
for (int i = 0; i < af.getParams().length; i++) {
out.addColumn(af.getParams()[i]);
}
out.writeLine();
}
out.addSubSection("RBF");
for (final RadialBasisFunction rbf : flat.getRBF()) {
out.addColumn(rbf.getClass().getSimpleName());
out.addColumn(rbf.getWidth());
out.addColumn(rbf.getPeak());
for (int i = 0; i < rbf.getCenters().length; i++) {
out.addColumn(rbf.getCenters()[i]);
}
out.writeLine();
}
out.flush();
}
/** {@inheritDoc} */
@Override
public Object read(final InputStream is) {
final RBFNetwork result = new RBFNetwork();
final FlatNetworkRBF flat = (FlatNetworkRBF) result.getFlat();
final EncogReadHelper in = new EncogReadHelper(is);
EncogFileSection section;
while ((section = in.readNextSection()) != null) {
if (section.getSectionName().equals("RBF-NETWORK")
&& section.getSubSectionName().equals("PARAMS")) {
final Map<String, String> params = section.parseParams();
result.getProperties().putAll(params);
}
if (section.getSectionName().equals("RBF-NETWORK")
&& section.getSubSectionName().equals("NETWORK")) {
final Map<String, String> params = section.parseParams();
flat.setBeginTraining(EncogFileSection.parseInt(params, BasicNetwork.TAG_BEGIN_TRAINING));
flat.setConnectionLimit(
EncogFileSection.parseDouble(params, BasicNetwork.TAG_CONNECTION_LIMIT));
flat.setContextTargetOffset(
EncogFileSection.parseIntArray(params, BasicNetwork.TAG_CONTEXT_TARGET_OFFSET));
flat.setContextTargetSize(
EncogFileSection.parseIntArray(params, BasicNetwork.TAG_CONTEXT_TARGET_SIZE));
flat.setEndTraining(EncogFileSection.parseInt(params, BasicNetwork.TAG_END_TRAINING));
flat.setHasContext(EncogFileSection.parseBoolean(params, BasicNetwork.TAG_HAS_CONTEXT));
flat.setInputCount(EncogFileSection.parseInt(params, PersistConst.INPUT_COUNT));
flat.setLayerCounts(EncogFileSection.parseIntArray(params, BasicNetwork.TAG_LAYER_COUNTS));
flat.setLayerFeedCounts(
EncogFileSection.parseIntArray(params, BasicNetwork.TAG_LAYER_FEED_COUNTS));
flat.setLayerContextCount(
EncogFileSection.parseIntArray(params, BasicNetwork.TAG_LAYER_CONTEXT_COUNT));
flat.setLayerIndex(EncogFileSection.parseIntArray(params, BasicNetwork.TAG_LAYER_INDEX));
flat.setLayerOutput(section.parseDoubleArray(params, PersistConst.OUTPUT));
flat.setLayerSums(new double[flat.getLayerOutput().length]);
flat.setOutputCount(EncogFileSection.parseInt(params, PersistConst.OUTPUT_COUNT));
flat.setWeightIndex(EncogFileSection.parseIntArray(params, BasicNetwork.TAG_WEIGHT_INDEX));
flat.setWeights(section.parseDoubleArray(params, PersistConst.WEIGHTS));
flat.setBiasActivation(section.parseDoubleArray(params, BasicNetwork.TAG_BIAS_ACTIVATION));
} else if (section.getSectionName().equals("RBF-NETWORK")
&& section.getSubSectionName().equals("ACTIVATION")) {
int index = 0;
flat.setActivationFunctions(new ActivationFunction[flat.getLayerCounts().length]);
for (final String line : section.getLines()) {
ActivationFunction af = null;
final List<String> cols = EncogFileSection.splitColumns(line);
final String name = "org.encog.engine.network.activation." + cols.get(0);
try {
final Class<?> clazz = Class.forName(name);
af = (ActivationFunction) clazz.newInstance();
} catch (final ClassNotFoundException e) {
throw new PersistError(e);
} catch (final InstantiationException e) {
throw new PersistError(e);
} catch (final IllegalAccessException e) {
throw new PersistError(e);
}
for (int i = 0; i < af.getParamNames().length; i++) {
af.setParam(i, CSVFormat.EG_FORMAT.parse(cols.get(i + 1)));
}
flat.getActivationFunctions()[index++] = af;
}
} else if (section.getSectionName().equals("RBF-NETWORK")
&& section.getSubSectionName().equals("RBF")) {
int index = 0;
final int hiddenCount = flat.getLayerCounts()[1];
final int inputCount = flat.getLayerCounts()[2];
flat.setRBF(new RadialBasisFunction[hiddenCount]);
for (final String line : section.getLines()) {
RadialBasisFunction rbf = null;
final List<String> cols = EncogFileSection.splitColumns(line);
final String name = "org.encog.mathutil.rbf." + cols.get(0);
try {
final Class<?> clazz = Class.forName(name);
rbf = (RadialBasisFunction) clazz.newInstance();
} catch (final ClassNotFoundException e) {
throw new PersistError(e);
} catch (final InstantiationException e) {
throw new PersistError(e);
} catch (final IllegalAccessException e) {
throw new PersistError(e);
}
rbf.setWidth(CSVFormat.EG_FORMAT.parse(cols.get(1)));
rbf.setPeak(CSVFormat.EG_FORMAT.parse(cols.get(2)));
rbf.setCenters(new double[inputCount]);
for (int i = 0; i < inputCount; i++) {
rbf.getCenters()[i] = CSVFormat.EG_FORMAT.parse(cols.get(i + 3));
}
flat.getRBF()[index++] = rbf;
}
}
}
return result;
}