@Override
protected void makeOptions(Parameterization config) {
super.makeOptions(config);
FileParameter fileP = new FileParameter(FILE_ID, FileParameter.FileType.INPUT_FILE);
if (config.grab(fileP)) {
file = fileP.getValue();
}
PatternParameter idP = new PatternParameter(ID_ID, ID_PATTERN_DEFAULT);
if (config.grab(idP)) {
idpattern = idP.getValue();
}
PatternParameter scoreP = new PatternParameter(SCORE_ID);
if (config.grab(scoreP)) {
scorepattern = scoreP.getValue();
}
Flag inverstedF = new Flag(INVERTED_ID);
if (config.grab(inverstedF)) {
inverted = inverstedF.getValue();
}
ObjectParameter<ScalingFunction> scalingP =
new ObjectParameter<>(SCALING_ID, ScalingFunction.class, IdentityScaling.class);
if (config.grab(scalingP)) {
scaling = scalingP.instantiateClass(config);
}
}
@Override
protected void makeOptions(Parameterization config) {
super.makeOptions(config);
PatternParameter positiveClassNameP = new PatternParameter(POSITIVE_CLASS_NAME_ID);
positiveClassNameP.setOptional(true);
if (config.grab(positiveClassNameP)) {
positiveClassName = positiveClassNameP.getValue();
}
IntParameter binsP = new IntParameter(BINS_ID, 50);
binsP.addConstraint(CommonConstraints.GREATER_THAN_ONE_INT);
if (config.grab(binsP)) {
bins = binsP.getValue();
}
ObjectParameter<ScalingFunction> scalingP =
new ObjectParameter<>(SCALING_ID, ScalingFunction.class, IdentityScaling.class);
if (config.grab(scalingP)) {
scaling = scalingP.instantiateClass(config);
}
Flag splitfreqF = new Flag(SPLITFREQ_ID);
if (config.grab(splitfreqF)) {
splitfreq = splitfreqF.getValue();
}
}
@Override
protected void makeOptions(Parameterization config) {
super.makeOptions(config);
DoubleParameter deltaP = new DoubleParameter(DELTA_ID);
if (config.grab(deltaP)) {
delta = deltaP.doubleValue();
}
deltaP.addConstraint(CommonConstraints.GREATER_EQUAL_ZERO_DOUBLE);
IntParameter nP = new IntParameter(N_ID, 1);
nP.addConstraint(CommonConstraints.GREATER_EQUAL_ONE_INT);
if (config.grab(nP)) {
n = nP.intValue();
}
DoubleParameter alphaP = new DoubleParameter(ALPHA_ID, 1.);
alphaP.addConstraint(CommonConstraints.GREATER_EQUAL_ONE_DOUBLE);
if (config.grab(alphaP)) {
alpha = alphaP.doubleValue();
}
ObjectParameter<Distribution> distP =
new ObjectParameter<>(DIST_ID, Distribution.class, UniformDistribution.class);
if (config.grab(distP)) {
dist = distP.instantiateClass(config);
}
}
@Override
protected void makeOptions(Parameterization config) {
super.makeOptions(config);
ObjectParameter<NumberVectorDistanceFunction<?>> distanceFunctionP =
new ObjectParameter<>(
EvaluateSilhouette.Parameterizer.DISTANCE_ID,
NumberVectorDistanceFunction.class,
EuclideanDistanceFunction.class);
if (config.grab(distanceFunctionP)) {
distance = distanceFunctionP.instantiateClass(config);
}
EnumParameter<NoiseHandling> noiseP =
new EnumParameter<NoiseHandling>(
EvaluateSilhouette.Parameterizer.NOISE_ID,
NoiseHandling.class,
NoiseHandling.TREAT_NOISE_AS_SINGLETONS);
if (config.grab(noiseP)) {
noiseOption = noiseP.getValue();
}
if (noiseOption == NoiseHandling.IGNORE_NOISE) {
Flag penalizeP = new Flag(EvaluateSilhouette.Parameterizer.NO_PENALIZE_ID);
if (config.grab(penalizeP)) {
penalize = penalizeP.isFalse();
}
}
}
@Override
protected void makeOptions(Parameterization config) {
super.makeOptions(config);
ObjectParameter<EarthModel> modelP =
new ObjectParameter<>(
EarthModel.MODEL_ID, EarthModel.class, SphericalVincentyEarthModel.class);
if (config.grab(modelP)) {
model = modelP.instantiateClass(config);
}
ObjectParameter<IndexFactory<O, ?>> innerP =
new ObjectParameter<>(
ProjectedIndex.Factory.Parameterizer.INDEX_ID, IndexFactory.class);
if (config.grab(innerP)) {
inner = innerP.instantiateClass(config);
}
Flag materializeF = new Flag(ProjectedIndex.Factory.Parameterizer.MATERIALIZE_FLAG);
if (config.grab(materializeF)) {
materialize = materializeF.isTrue();
}
Flag norefineF = new Flag(ProjectedIndex.Factory.Parameterizer.DISABLE_REFINE_FLAG);
if (config.grab(norefineF)) {
norefine = norefineF.isTrue();
}
}
@Override
protected void makeOptions(Parameterization config) {
super.makeOptions(config);
DoubleArrayListParameter meansP = new DoubleArrayListParameter(INITIAL_MEANS);
if (config.grab(meansP)) {
initialMeans = meansP.getValue().toArray(new double[0][]);
}
}
@Override
protected void makeOptions(Parameterization config) {
super.makeOptions(config);
final DoubleParameter param = new DoubleParameter(D_ID);
if (config.grab(param)) {
eps = param.getValue();
}
}
@Override
protected void makeOptions(Parameterization config) {
super.makeOptions(config);
final Flag flag = new Flag(INVERT_ID);
if (config.grab(flag)) {
invert = flag.getValue();
}
}
@Override
protected void makeOptions(Parameterization config) {
super.makeOptions(config);
ObjectParameter<DistanceFunction<? super O>> distanceFunctionP =
makeParameterDistanceFunction(EuclideanDistanceFunction.class, DistanceFunction.class);
if (config.grab(distanceFunctionP)) {
distanceFunction = distanceFunctionP.instantiateClass(config);
}
}
@Override
protected void makeOptions(Parameterization config) {
super.makeOptions(config);
{
DoubleParameter param =
new DoubleParameter(ALPHA_ID, 0.2) //
.addConstraint(CommonConstraints.GREATER_EQUAL_ZERO_DOUBLE) //
.addConstraint(CommonConstraints.LESS_EQUAL_ONE_DOUBLE);
if (config.grab(param)) {
alpha = param.getValue();
}
}
{
DoubleParameter param =
new DoubleParameter(BETA_ID, 0.8) //
.addConstraint(CommonConstraints.GREATER_THAN_ZERO_DOUBLE) //
.addConstraint(CommonConstraints.LESS_THAN_ONE_DOUBLE);
if (config.grab(param)) {
beta = param.getValue();
}
}
{
DoubleParameter param =
new DoubleParameter(W_ID, 0.05) //
.addConstraint(CommonConstraints.GREATER_EQUAL_ZERO_DOUBLE);
if (config.grab(param)) {
w = param.getValue();
}
}
{
Flag param = new Flag(HEURISTICS_ID);
if (config.grab(param)) {
heuristics = param.getValue();
}
}
if (heuristics) {
IntParameter param =
new IntParameter(D_ZERO_ID, 5) //
.addConstraint(CommonConstraints.GREATER_EQUAL_ONE_INT);
if (config.grab(param)) {
d_zero = param.getValue();
}
}
{
RandomParameter param = new RandomParameter(RANDOM_ID);
if (config.grab(param)) {
random = param.getValue();
}
}
}
@Override
protected void makeOptions(Parameterization config) {
super.makeOptions(config);
final IntParameter dimP =
new IntParameter(DIM_ID) //
.addConstraint(CommonConstraints.GREATER_EQUAL_ZERO_INT);
if (config.grab(dimP)) {
dim = dimP.getValue();
}
}
@Override
protected void makeOptions(Parameterization config) {
super.makeOptions(config);
IntParameter portP = new IntParameter(PORT_ID, port);
portP.addConstraint(CommonConstraints.GREATER_EQUAL_ONE_INT);
portP.addConstraint(new LessEqualConstraint(65535));
if (config.grab(portP)) {
this.port = portP.getValue();
}
}
@Override
protected void makeOptions(Parameterization config) {
super.makeOptions(config);
final FileParameter MATRIX_PARAM =
new FileParameter(MATRIX_ID, FileParameter.FileType.INPUT_FILE);
if (config.grab(MATRIX_PARAM)) {
matrixfile = MATRIX_PARAM.getValue();
}
final ObjectParameter<DistanceParser> PARSER_PARAM =
new ObjectParameter<>(PARSER_ID, DistanceParser.class, AsciiDistanceParser.class);
if (config.grab(PARSER_PARAM)) {
parser = PARSER_PARAM.instantiateClass(config);
}
}
@Override
protected void makeOptions(Parameterization config) {
super.makeOptions(config);
DoubleParameter probP =
new DoubleParameter(PROB_ID) //
.addConstraint(CommonConstraints.GREATER_EQUAL_ZERO_DOUBLE) //
.addConstraint(CommonConstraints.LESS_EQUAL_ONE_DOUBLE);
if (config.grab(probP)) {
prob = probP.getValue().doubleValue();
}
RandomParameter rndP = new RandomParameter(SEED_ID);
if (config.grab(rndP)) {
rnd = rndP.getValue();
}
}
@Override
protected void makeOptions(Parameterization config) {
super.makeOptions(config);
ObjectParameter<DistributionEstimator<D>> innerP =
new ObjectParameter<>(INNER_ID, DistributionEstimator.class);
if (config.grab(innerP)) {
inner = innerP.instantiateClass(config);
}
DoubleParameter trimP = new DoubleParameter(TRIM_ID);
trimP.addConstraint(CommonConstraints.GREATER_THAN_ZERO_DOUBLE);
trimP.addConstraint(CommonConstraints.LESS_THAN_HALF_DOUBLE);
if (config.grab(trimP)) {
trim = trimP.doubleValue();
}
}
@Override
protected void makeOptions(Parameterization config) {
super.makeOptions(config);
ObjectParameter<PrimitiveDistanceFunction<NumberVector>> distanceFunctionP =
new ObjectParameter<>(
DISTANCE_ID, PrimitiveDistanceFunction.class, EuclideanDistanceFunction.class);
if (config.grab(distanceFunctionP)) {
distance = distanceFunctionP.instantiateClass(config);
}
EnumParameter<NoiseHandling> noiseP =
new EnumParameter<NoiseHandling>(
NOISE_ID, NoiseHandling.class, NoiseHandling.TREAT_NOISE_AS_SINGLETONS);
if (config.grab(noiseP)) {
noiseHandling = noiseP.getValue();
}
}
@Override
protected void makeOptions(Parameterization config) {
super.makeOptions(config);
DoubleParameter palphaP = new DoubleParameter(EIGENPAIR_FILTER_PALPHA, DEFAULT_PALPHA);
palphaP.addConstraint(CommonConstraints.GREATER_THAN_ZERO_DOUBLE);
palphaP.addConstraint(CommonConstraints.LESS_THAN_ONE_DOUBLE);
if (config.grab(palphaP)) {
palpha = palphaP.getValue();
}
DoubleParameter walphaP =
new DoubleParameter(
WeakEigenPairFilter.Parameterizer.EIGENPAIR_FILTER_WALPHA, DEFAULT_WALPHA);
walphaP.addConstraint(CommonConstraints.GREATER_EQUAL_ZERO_DOUBLE);
if (config.grab(walphaP)) {
walpha = walphaP.getValue();
}
}
@Override
protected void makeOptions(Parameterization config) {
super.makeOptions(config);
ObjectParameter<ClusteringAlgorithm<?>> referencealgP =
new ObjectParameter<>(
REFERENCE_ID, ClusteringAlgorithm.class, ByLabelOrAllInOneClustering.class);
if (config.grab(referencealgP)) {
referencealg = referencealgP.instantiateClass(config);
}
Flag noiseSpecialHandlingF = new Flag(NOISE_ID);
if (config.grab(noiseSpecialHandlingF)) {
noiseSpecialHandling = noiseSpecialHandlingF.getValue();
}
Flag selfPairingF = new Flag(SELFPAIR_ID);
if (config.grab(selfPairingF)) {
selfPairing = selfPairingF.getValue();
}
}
@Override
protected void makeOptions(Parameterization config) {
super.makeOptions(config);
EnumParameter<ScalingReference> scalingReferenceP =
new EnumParameter<>(
SCALINGREFERENCE_ID, ScalingReference.class, ScalingReference.UNITCUBE);
if (config.grab(scalingReferenceP)) {
scalingreference = scalingReferenceP.getValue();
}
EnumParameter<NoiseDistribution> noisedistributionP =
new EnumParameter<>(
NOISEDISTRIBUTION_ID, NoiseDistribution.class, NoiseDistribution.UNIFORM);
if (config.grab(noisedistributionP)) {
noisedistribution = noisedistributionP.getValue();
}
DoubleParameter percentageP = new DoubleParameter(PERCENTAGE_ID, .01);
percentageP.addConstraint(CommonConstraints.GREATER_THAN_ZERO_DOUBLE);
percentageP.addConstraint(CommonConstraints.LESS_EQUAL_ONE_DOUBLE);
if (config.grab(percentageP)) {
percentage = percentageP.getValue();
}
LongParameter seedP = new LongParameter(SEED_ID);
seedP.setOptional(true);
if (config.grab(seedP)) {
seed = seedP.getValue();
}
DoubleListParameter minimaP = new DoubleListParameter(MINIMA_ID);
minimaP.setOptional(true);
if (config.grab(minimaP)) {
minima = minimaP.getValue().clone();
}
DoubleListParameter maximaP = new DoubleListParameter(MAXIMA_ID);
maximaP.setOptional(true);
if (config.grab(maximaP)) {
maxima = maximaP.getValue().clone();
}
config.checkConstraint(new AllOrNoneMustBeSetGlobalConstraint(minimaP, maximaP));
config.checkConstraint(new EqualSizeGlobalConstraint(minimaP, maximaP));
}
@Override
protected void makeOptions(Parameterization config) {
super.makeOptions(config);
ObjectParameter<DimensionSelectingSubspaceDistanceFunction<V>> param =
new ObjectParameter<>(
DISTANCE_FUNCTION_ID,
DimensionSelectingSubspaceDistanceFunction.class,
SubspaceEuclideanDistanceFunction.class);
if (config.grab(param)) {
distance = param.instantiateClass(config);
}
DoubleParameter epsilonP = new DoubleParameter(EPSILON_ID);
if (config.grab(epsilonP)) {
epsilon = epsilonP.getValue();
}
IntParameter minptsP = new IntParameter(MINPTS_ID);
minptsP.addConstraint(CommonConstraints.GREATER_EQUAL_ONE_INT);
if (config.grab(minptsP)) {
minpts = minptsP.getValue();
}
}
@Override
protected void makeOptions(Parameterization config) {
super.makeOptions(config);
format = ClassGenericsUtil.parameterizeOrAbort(CSVReaderFormat.class, config);
}